Comparing distributions of experimental and random diffusion values (p-values for KS tests)
Seeds	Recipients	Randomize Seeds (degree-matched)	Randomize Recipients (degree-matched)	Randomize Seeds (uniform)	Randomize Recipients (uniform)
103_sigma_AD Exclusive	GS_tier1	8.66e-02	1.68e-01	1.76e-01	8.68e-01
GS_tier1 Exclusive	103_sigma_AD	8.98e-02	6.91e-01	8.80e-01	9.24e-01
103_sigma_AD Exclusive	GS_tier1 Exclusive	2.62e-01	2.72e-01	4.75e-01	5.74e-01
GS_tier1 Exclusive	103_sigma_AD Exclusive	3.06e-02	3.66e-01	9.31e-01	7.68e-01
103_sigma_AD Exclusive	Overlap	1.36e-01	4.15e-02	8.22e-02	2.41e-01
GS_tier1 Exclusive	Overlap	4.36e-07	4.36e-07	4.36e-07	4.36e-07
Overlap	Exclusives	3.64e-03	3.85e-03	1.19e-03	2.97e-03



Evaluating how well 103_sigma_AD genes are linked to GS_tier1 genes, comparing against random

ROC results
Seeds	Recipients	AUROC	Z-score for Random Seeds (degree-matched)	Z-score for Random Recipients (degree-matched)	Z-score for Random Seeds (uniform)	Z-score for Random Recipients (uniform)
103_sigma_AD Exclusive	GS_tier1	0.50	-1.82	-2.83	-1.48	-0.02
GS_tier1 Exclusive	103_sigma_AD	0.51	-1.20	-0.81	-0.90	0.38
103_sigma_AD Exclusive	GS_tier1 Exclusive	0.52	-1.60	-2.07	-0.91	0.54
GS_tier1 Exclusive	103_sigma_AD Exclusive	0.49	-2.01	-1.31	-1.24	-0.07
103_sigma_AD Exclusive	Overlap	0.29	-1.65	-2.21	-1.79	-1.12
GS_tier1 Exclusive	Overlap	1.00	2.68	2.96	2.95	3.03
Overlap	Exclusives	0.59	1.90	2.67	1.92	3.02

PRC results
Seeds	Recipients	AUPRC	Z-score for Random Seeds (degree-matched)	Z-score for Random Recipients (degree-matched)	Z-score for Random Seeds (uniform)	Z-score for Random Recipients (uniform)
103_sigma_AD Exclusive	GS_tier1	0.00	-1.39	-1.81	-1.03	-0.18
GS_tier1 Exclusive	103_sigma_AD	0.01	9.42	11.50	4.89	4.51
103_sigma_AD Exclusive	GS_tier1 Exclusive	0.00	-1.24	-1.73	-0.88	-0.35
GS_tier1 Exclusive	103_sigma_AD Exclusive	0.00	-1.51	-1.35	-1.27	-0.60
103_sigma_AD Exclusive	Overlap	0.00	-0.29	-0.74	-0.36	-0.34
GS_tier1 Exclusive	Overlap	0.21	527.38	353.55	1237.88	486.68
Overlap	Exclusives	0.06	55.23	99.84	47.26	85.25

Z-scores are computed for the experimental area under ROC or PRC based on distributions of the random areas under these curves
Seeds: Genes where diffusion signal starts FROM)
Recipients: Genes that receive the diffusion signal and that are in the other validated group
Random genes are selected either uniformly or degree matched



Number of genes
**	#Total	# Mapped in the network	Not mapped genes	 
103_sigma_AD Exclusive	100	100	
GS_tier1 Exclusive	28	27	MS4A
Overlap	3	3